Machine-Learning-Based Single-Molecule Quantification of Circulating MicroRNA Mixtures

Jonathan Jeffet, Miriam Neaman, Jasline Deek, Yuval Ebenstein, Yohai Bar-Sinai

Research output: Contribution to journalArticlepeer-review


MicroRNAs (miRs) are small noncoding RNAs that regulate gene expression and are emerging as powerful indicators of diseases. MiRs are secreted in blood plasma and thus may report on systemic aberrations at an early stage via liquid biopsy analysis. We present a method for multiplexed single-molecule detection and quantification of a selected panel of miRs. The proposed assay does not depend on sequencing, requires less than 1 mL of blood, and provides fast results by direct analysis of native, unamplified miRs. This is enabled by a novel combination of compact spectral imaging and a machine learning-based detection scheme that allows simultaneous multiplexed classification of multiple miR targets per sample. The proposed end-to-end pipeline is extremely time efficient and cost-effective. We benchmark our method with synthetic mixtures of three target miRs, showcasing the ability to quantify and distinguish subtle ratio changes between miR targets.

Original languageEnglish
Pages (from-to)3781-3792
Number of pages12
JournalACS Sensors
Issue number10
StatePublished - 27 Oct 2023


  • cancer diagnostics
  • circulating microRNA
  • machine learning
  • single-molecule
  • spectral imaging

All Science Journal Classification (ASJC) codes

  • Bioengineering
  • Instrumentation
  • Process Chemistry and Technology
  • Fluid Flow and Transfer Processes


Dive into the research topics of 'Machine-Learning-Based Single-Molecule Quantification of Circulating MicroRNA Mixtures'. Together they form a unique fingerprint.

Cite this